7/19/2018

LSR vs FORTESSA

  • ordered by machine, using only LSR for remaining

LSR vs FORTESSA

  • ordered by machine, using only LSR for remaining

Raw centroids

  • median value of markers in each cluster

Normalized centroids

  • median z-score of markers in each cluster

Freq cluster

  • median z-score of markers in each cluster

Freq population

  • median z-score of markers in each cluster

Meta Phenograph +Meta tsne

##   Running PhenoGraph...  Finding nearest neighbors...DONE ~ 0.072 s
##   Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 1.473 s
##   Build undirected graph from the weighted links...DONE ~ 0.241 s
##   Run louvain clustering on the graph ...DONE ~ 0.113 s
##   Return a community class
##   -Modularity value: 0.9052814 
##   -Number of clusters: 16 DONE!
##   Running t-SNE...with seed 42  DONE
  • colored by “meta” phenograph cluster

Meta Phenograph +Meta tsne

  • colored by control

Meta Phenograph +Meta tsne

  • colored by percent of cells that are naive in original clusters

Meta Phenograph +Meta tsne

  • colored by percent of cells that are effector in original clusters

Meta Phenograph +Meta tsne

  • colored by percent of cells that are effector memory in original clusters

Meta Phenograph +Meta tsne

  • colored by percent of cells that are central memory in original clusters

Meta Phenograph +Meta tsne

  • colored by median CD45 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median CCR7 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median CD28 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median CD95 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median CD27 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median IgD (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • colored by median CD19 (scaled) expression in original clusters

Meta Phenograph +Meta tsne

  • meta-clusters 9, 2, 1, 16, 8

Meta Phenograph +Meta tsne

  • meta-clusters 9, 2, 1, 16, 8

Meta Phenograph +Meta tsne

NOTES

NOTES